Rroxscaffold_6G00407330

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0015656
Physical Location & Seq
Reverse (-)
30012077 .. 30025775
13699 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00407330.1

Sequence Viewer

Length: 1251 bp
ATGCATAAGGCCAGACTTGTTCATGATTATATACGTAGGAATAAGTTTTACTTGGATGTGATCTTGGGGACGGCGATGATTGATATGCATGCTAAGTGCGGGTGTGTTGATACCGCAAGGGAAATTTTCGACAGGATGCAAGTGAGGAATGTTAGAACATGGAGTGCCCTGATTGCGGCTTATGGTTATCATGGGCGCGGCAAGGAAGCTCTTGAGATATTTGAGATGATGTTGAGCAGCGGAGTGTTACCAAATGCAGTTACATTTATTTCACTATTATATGCTTGTAGTCATGCTGGCTTGACTGAAGAGGGTCTGCGGTTTTTCTCATTGATGTGGGATGAATATGCTGTCAGAGCAGATGTTAAACATTATACTTGTATGGTGGATCTTCTGGGTCGTGCTGGGAAACTTGATGAGGCCTTGAAATTGGCCGAGAGTATGGCAGTAGAGAAAGATGAGGGGTTATGGAGTGCTTTGCTTGGGGCATGTAGAGTCCATGGGAATCTAGACCTAGCAGAAAAGGCAGCTATACTAAGAGCAAGTTCACCTGTTGGGTCGAAAGGTCAAGGTCATTGGGTAACCGAGTCAAGACACTATTCACGCCCTTTGGACATGTGTTTCCACCAGTTCTGTTTCTTGACCGGTCGAGTTACCCCATATGGCCGGAATTTACCTCGAAAGCTATGCGACTCGATGAACCCTATAATCCCAATCTTCAAAATTCGACCTCCACACTTTGAATCGTTGCAAGCCACCTTGGGAGAAAACATCTACATCATCGGGCTCCAAAAGCCCTCAAGAAACACTAGCTATGTAGGTCGGAATCGGAAGTTCCGATTTGGGCTAGACGCATCGCCGCCACTAAACTTCCCGGCCTTGCAACGCCTTCCACGGCTCATTTCTTGCTCCAATTCTCCCACCGACCTCAAGAGGGGATTGAGGCGAGCAAAATCCACTTTGAATCGTGTCCTATGGTGGCCGGAGGAGGGAGAACGACGCGGTGTAGGGAGAGGGCGAAAGTGGGGTCGGGACCGAAGAGAGAGAAAAACAACTACAACCAAGCCCAAGAGCCCAATCTCAGGCCCAGACCCACGAGAACCAAAGAAAGCAATAGCAGAAGCTATTCTGCCTTTGCTAATCATCACCACCGTCGCCACGGTTTTCGGCGGATGGCCCTTCCAGCGTGGCATCAGCGCCACCTCTCCCAAATGCAGAACCCGAAAACCAATCAGTGCCGGAATTGAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DYW_deaminase PPR PPR_2

Protein Analysis

416

Amino Acids

46.87

Weight (kDa)

9.91

Isoelectric Point (pI)

47.24

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 50 - 97 2.2e-10 PPR repeat family
PPR PF01535 53 - 82 3.4e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015656)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g19240 FvH4_6g19240 FvH4_6g19240
malus_domestica MD12G1028100.v1.1
prunus_persica Prupe.7G103500_v2.0.a1
pyrus_communis pycom12g02690
rosa_chinensis RchiOBHm_Chr3g0474341
rosa_laevigata RLG00000023931
rosa_multiflora Rmu_sc0000098.1_g000006 Rmu_sc0004507.1_g000010 Rmu_sc0031141.1_g000001
rosa_roxburghii Rroxscaffold_6G00407330
rosa_rugosa Rorug03G0140200
rosa_samantha Rh3BG220200 Rh3DG215900
rosa_wichuraiana Rw3G017420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 2 cut(s) 198, 1002
AciI CCGC 9 cut(s) 99, 114, 176, 198, 240, 319, 860, 1002, 1170
AclWI GGATC 1 cut(s) 396
AcoI YGGCCR 3 cut(s) 432, 664, 980
AcsI RAATTY 3 cut(s) 123, 670, 723
AcuI CTGAAG 1 cut(s) 327
AfiI CCNNNNNNNGG 4 cut(s) 175, 934, 989, 1082
AflIII ACRYGT 1 cut(s) 615
AgeI ACCGGT 1 cut(s) 644
AgsI TTSAA 4 cut(s) 427, 721, 743, 964
AluBI AGCT 5 cut(s) 209, 530, 685, 813, 1124
AluI AGCT 5 cut(s) 209, 530, 685, 813, 1124
AlwI GGATC 1 cut(s) 396
AoxI GGCC 8 cut(s) 9, 420, 432, 664, 876, 980, 1084, 1175
ApeKI GCWGC 2 cut(s) 237, 527
ApoI RAATTY 3 cut(s) 123, 670, 723
ArsI GACNNNNNNTTYG 2 cut(s) 1012, 1044
AsiGI ACCGGT 1 cut(s) 644
Asp700I GAANNNNTTC 1 cut(s) 1125
AspLEI GCGC 2 cut(s) 198, 1199
AspS9I GGNCC 3 cut(s) 1033, 1085, 1176
AsuC2I CCSGG 1 cut(s) 875
AsuHPI GGTGA 2 cut(s) 540, 1138
AvaII GGWCC 1 cut(s) 1033
BaeGI GKGCMC 1 cut(s) 169
BanII GRGCYC 2 cut(s) 789, 1076
BauI CACGAG 1 cut(s) 1095
BbvI GCAGC 2 cut(s) 249, 539
BccI CCATC 1 cut(s) 1167
BceAI ACGGC 2 cut(s) 87, 911
BcgI CGANNNNNNTGC 2 cut(s) 669, 703
BcnI CCSGG 1 cut(s) 875
BfaI CTAG 4 cut(s) 509, 515, 810, 848
BfoI RGCGCY 1 cut(s) 1200
BisI GCNGC 5 cut(s) 177, 199, 238, 528, 860
BlsI GCNGC 5 cut(s) 178, 200, 239, 529, 861
Bme1390I CCNGG 1 cut(s) 875
Bme18I GGWCC 1 cut(s) 1033
BmgT120I GGNCC 3 cut(s) 1033, 1085, 1176
BmiI GGNNCC 2 cut(s) 788, 1034
BmrFI CCNGG 1 cut(s) 875
BmsI GCATC 3 cut(s) 126, 863, 1200
BpuEI CTTGAG 3 cut(s) 233, 784, 914
BpuMI CCSGG 1 cut(s) 875
BsaAI YACGTR 1 cut(s) 35
BsaJI CCNNGG 4 cut(s) 499, 759, 893, 1158
BsaWI WCCGGW 1 cut(s) 644
Bsc4I CCNNNNNNNGG 4 cut(s) 175, 934, 989, 1082
Bse118I RCCGGY 1 cut(s) 644
Bse1I ACTGG 1 cut(s) 628
BseDI CCNNGG 4 cut(s) 499, 759, 893, 1158
BseGI GGATG 4 cut(s) 61, 141, 346, 1178
BseLI CCNNNNNNNGG 4 cut(s) 175, 934, 989, 1082
BseMII CTCAG 1 cut(s) 1095
BseNI ACTGG 1 cut(s) 628
BseRI GAGGAG 1 cut(s) 1001
BseSI GKGCMC 1 cut(s) 169
BseXI GCAGC 2 cut(s) 249, 539
BseYI CCCAGC 1 cut(s) 404
Bsh1236I CGCG 2 cut(s) 198, 1002
Bsh1285I CGRYCG 1 cut(s) 649
BshFI GGCC 8 cut(s) 11, 422, 434, 666, 878, 982, 1086, 1177
BshTI ACCGGT 1 cut(s) 644
BsiEI CGRYCG 1 cut(s) 649
BsiSI CCGG 5 cut(s) 645, 667, 875, 983, 1239
BslFI GGGAC 2 cut(s) 82, 1046
BslI CCNNNNNNNGG 4 cut(s) 175, 934, 989, 1082
BsmFI GGGAC 2 cut(s) 82, 1046
BsnI GGCC 8 cut(s) 11, 422, 434, 666, 878, 982, 1086, 1177
Bsp1286I GDGCHC 3 cut(s) 169, 789, 1076
Bsp143I GATC 2 cut(s) 60, 388
Bsp19I CCATGG 1 cut(s) 499
BspACI CCGC 9 cut(s) 99, 114, 176, 198, 240, 319, 860, 1002, 1170
BspANI GGCC 8 cut(s) 11, 422, 434, 666, 878, 982, 1086, 1177
BspCNI CTCAG 1 cut(s) 1094
BspFNI CGCG 2 cut(s) 198, 1002
BspHI TCATGA 1 cut(s) 22
BspLI GGNNCC 2 cut(s) 788, 1034
BspPI GGATC 1 cut(s) 396
BsrFI RCCGGY 1 cut(s) 644
BsrI ACTGG 1 cut(s) 628
BssAI RCCGGY 1 cut(s) 644
BssECI CCNNGG 4 cut(s) 499, 759, 893, 1158
BssMI GATC 2 cut(s) 60, 388
BssSI CACGAG 1 cut(s) 1095
BssT1I CCWWGG 2 cut(s) 499, 759
Bst2BI CACGAG 1 cut(s) 1095
Bst4CI ACNGT 2 cut(s) 1153, 1162
Bst6I CTCTTC 2 cut(s) 303, 1033
BstBAI YACGTR 1 cut(s) 35
BstC8I GCNNGC 4 cut(s) 90, 298, 753, 948
BstDEI CTNAG 3 cut(s) 93, 536, 1081
BstDSI CCRYGG 3 cut(s) 499, 893, 1158
BstEII GGTNACC 1 cut(s) 580
BstF5I GGATG 4 cut(s) 61, 141, 346, 1178
BstFNI CGCG 2 cut(s) 198, 1002
BstH2I RGCGCY 1 cut(s) 1200
BstHHI GCGC 2 cut(s) 198, 1199
BstKTI GATC 2 cut(s) 63, 391
BstMBI GATC 2 cut(s) 60, 388
BstMCI CGRYCG 1 cut(s) 649
BstMWI GCNNNNNNNGC 5 cut(s) 173, 356, 524, 793, 1183
BstNSI RCATGY 3 cut(s) 92, 492, 619
BstPI GGTNACC 1 cut(s) 580
BstSCI CCNGG 1 cut(s) 873
BstSLI GKGCMC 1 cut(s) 169
BstSNI TACGTA 1 cut(s) 35
BstUI CGCG 2 cut(s) 198, 1002
BstV1I GCAGC 2 cut(s) 249, 539
BstX2I RGATCY 1 cut(s) 388
BstYI RGATCY 1 cut(s) 388
BsuRI GGCC 8 cut(s) 11, 422, 434, 666, 878, 982, 1086, 1177
BtgI CCRYGG 3 cut(s) 499, 893, 1158
BtgZI GCGATG 2 cut(s) 89, 840
BtsCI GGATG 4 cut(s) 61, 141, 346, 1178
BtsIMutI CAGTG 1 cut(s) 1240
Cac8I GCNNGC 4 cut(s) 90, 298, 753, 948
CciI TCATGA 1 cut(s) 22
CfoI GCGC 2 cut(s) 198, 1199
Cfr10I RCCGGY 1 cut(s) 644
Cfr13I GGNCC 3 cut(s) 1033, 1085, 1176
CseI GACGC 2 cut(s) 860, 1008
CspAI ACCGGT 1 cut(s) 644
CviAII CATG 8 cut(s) 23, 89, 159, 191, 293, 489, 500, 616
DdeI CTNAG 3 cut(s) 93, 536, 1081
DpnI GATC 2 cut(s) 62, 390
DpnII GATC 2 cut(s) 60, 388
EaeI YGGCCR 3 cut(s) 432, 664, 980
Eam1104I CTCTTC 2 cut(s) 303, 1033
EarI CTCTTC 2 cut(s) 303, 1033
EciI GGCGGA 1 cut(s) 1185
Eco105I TACGTA 1 cut(s) 35
Eco130I CCWWGG 2 cut(s) 499, 759
Eco147I AGGCCT 1 cut(s) 422
Eco24I GRGCYC 2 cut(s) 789, 1076
Eco47I GGWCC 1 cut(s) 1033
Eco57I CTGAAG 1 cut(s) 327
Eco91I GGTNACC 1 cut(s) 580
EcoO65I GGTNACC 1 cut(s) 580
EcoT14I CCWWGG 2 cut(s) 499, 759
EcoT22I ATGCAT 2 cut(s) 6, 90
EcoT38I GRGCYC 2 cut(s) 789, 1076
ErhI CCWWGG 2 cut(s) 499, 759
FaeI CATG 8 cut(s) 26, 92, 162, 194, 296, 492, 503, 619
FalI AAGNNNNNCTT 2 cut(s) 35, 67
FaqI GGGAC 2 cut(s) 82, 1046
FatI CATG 8 cut(s) 22, 88, 158, 190, 292, 488, 499, 615
FauI CCCGC 1 cut(s) 92
FauNDI CATATG 1 cut(s) 661
Fnu4HI GCNGC 5 cut(s) 177, 199, 238, 528, 860
FokI GGATG 4 cut(s) 68, 148, 353, 1185
FriOI GRGCYC 2 cut(s) 789, 1076
Fsp4HI GCNGC 5 cut(s) 177, 199, 238, 528, 860
FspBI CTAG 4 cut(s) 509, 515, 810, 848
GlaI GCGC 2 cut(s) 197, 1198
GluI GCNGC 5 cut(s) 177, 199, 238, 528, 860
GsaI CCCAGC 1 cut(s) 408
HaeII RGCGCY 1 cut(s) 1200
HaeIII GGCC 8 cut(s) 11, 422, 434, 666, 878, 982, 1086, 1177
HapII CCGG 5 cut(s) 645, 667, 875, 983, 1239
HgaI GACGC 2 cut(s) 860, 1008
HhaI GCGC 2 cut(s) 198, 1199
Hin1II CATG 8 cut(s) 26, 92, 162, 194, 296, 492, 503, 619
Hin6I GCGC 2 cut(s) 196, 1197
HinP1I GCGC 2 cut(s) 196, 1197
HinfI GANTC 7 cut(s) 495, 505, 587, 692, 743, 826, 964
HpaII CCGG 5 cut(s) 645, 667, 875, 983, 1239
HphI GGTGA 2 cut(s) 540, 1138
Hpy166II GTNNAC 1 cut(s) 548
Hpy188I TCNGA 4 cut(s) 356, 825, 831, 839
Hpy188III TCNNGA 8 cut(s) 23, 212, 509, 591, 640, 801, 931, 1031
Hpy8I GTNNAC 1 cut(s) 548
Hpy99I CGWCG 2 cut(s) 1002, 1157
HpyAV CCTTC 2 cut(s) 899, 1189
HpyCH4III ACNGT 2 cut(s) 1153, 1162
HpyCH4IV ACGT 1 cut(s) 34
HpyCH4V TGCA 7 cut(s) 4, 88, 139, 257, 751, 883, 1215
HpyF10VI GCNNNNNNNGC 5 cut(s) 173, 356, 524, 793, 1183
HpyF3I CTNAG 3 cut(s) 93, 536, 1081
HpySE526I ACGT 1 cut(s) 34
Hsp92II CATG 8 cut(s) 26, 92, 162, 194, 296, 492, 503, 619
HspAI GCGC 2 cut(s) 196, 1197
Kzo9I GATC 2 cut(s) 60, 388
LmnI GCTCC 2 cut(s) 792, 914
Lsp1109I GCAGC 2 cut(s) 249, 539
LweI GCATC 3 cut(s) 126, 863, 1200
MaeI CTAG 4 cut(s) 509, 515, 810, 848
MaeII ACGT 1 cut(s) 34
MaeIII GTNAC 4 cut(s) 246, 259, 580, 652
MalI GATC 2 cut(s) 62, 390
MboI GATC 2 cut(s) 60, 388
MboII GAAGA 4 cut(s) 320, 383, 709, 1050
MflI RGATCY 1 cut(s) 388
MhlI GDGCHC 3 cut(s) 169, 789, 1076
MluCI AATT 6 cut(s) 123, 428, 670, 723, 913, 1242
MlyI GAGTC 3 cut(s) 504, 596, 686
MmeI TCCRAC 1 cut(s) 803
Mph1103I ATGCAT 2 cut(s) 6, 90
MroXI GAANNNNTTC 1 cut(s) 1125
MseI TTAA 1 cut(s) 366
MslI CAYNNNNRTG 1 cut(s) 334
MspA1I CMGCKG 1 cut(s) 240
MspI CCGG 5 cut(s) 645, 667, 875, 983, 1239
MspR9I CCNGG 1 cut(s) 875
MvnI CGCG 2 cut(s) 198, 1002
MwoI GCNNNNNNNGC 5 cut(s) 173, 356, 524, 793, 1183
NciI CCSGG 1 cut(s) 875
NcoI CCATGG 1 cut(s) 499
NdeI CATATG 1 cut(s) 661
NdeII GATC 2 cut(s) 60, 388
NlaIII CATG 8 cut(s) 26, 92, 162, 194, 296, 492, 503, 619
NlaIV GGNNCC 2 cut(s) 788, 1034
NmeAIII GCCGAG 1 cut(s) 460
NsiI ATGCAT 2 cut(s) 6, 90
NspI RCATGY 3 cut(s) 92, 492, 619
PaeI GCATGC 1 cut(s) 92
PagI TCATGA 1 cut(s) 22
PceI AGGCCT 1 cut(s) 422
PciI ACATGT 1 cut(s) 615
PcsI WCGNNNNNNNCGW 1 cut(s) 835
PdmI GAANNNNTTC 1 cut(s) 1125
PfeI GAWTC 4 cut(s) 505, 743, 826, 964
PinAI ACCGGT 1 cut(s) 644
PkrI GCNGC 5 cut(s) 178, 200, 239, 529, 861
PleI GAGTC 3 cut(s) 503, 595, 686
PpsI GAGTC 3 cut(s) 503, 595, 686
Ppu21I YACGTR 1 cut(s) 35
PscI ACATGT 1 cut(s) 615
PspEI GGTNACC 1 cut(s) 580
PspFI CCCAGC 1 cut(s) 404
PspN4I GGNNCC 2 cut(s) 788, 1034
PspPI GGNCC 3 cut(s) 1033, 1085, 1176
PsuI RGATCY 1 cut(s) 388
RseI CAYNNNNRTG 1 cut(s) 334
SaqAI TTAA 1 cut(s) 366
SatI GCNGC 5 cut(s) 177, 199, 238, 528, 860
Sau3AI GATC 2 cut(s) 60, 388
Sau96I GGNCC 3 cut(s) 1033, 1085, 1176
SchI GAGTC 3 cut(s) 504, 596, 686
ScrFI CCNGG 1 cut(s) 875
SduI GDGCHC 3 cut(s) 169, 789, 1076
SfaNI GCATC 3 cut(s) 126, 863, 1200
SinI GGWCC 1 cut(s) 1033
SmiMI CAYNNNNRTG 1 cut(s) 334
SmlI CTYRAG 3 cut(s) 212, 799, 929
SmoI CTYRAG 3 cut(s) 212, 799, 929
SnaBI TACGTA 1 cut(s) 35
SphI GCATGC 1 cut(s) 92
Sse9I AATT 6 cut(s) 123, 428, 670, 723, 913, 1242
SseBI AGGCCT 1 cut(s) 422
SsiI CCGC 9 cut(s) 99, 114, 176, 198, 240, 319, 860, 1002, 1170
SspMI CTAG 4 cut(s) 509, 515, 810, 848
StuI AGGCCT 1 cut(s) 422
StyD4I CCNGG 1 cut(s) 873
StyI CCWWGG 2 cut(s) 499, 759
TaaI ACNGT 2 cut(s) 1153, 1162
TaiI ACGT 1 cut(s) 37
TaqI TCGA 6 cut(s) 129, 560, 649, 679, 695, 727
TaqII GACCGA 1 cut(s) 1050
TasI AATT 6 cut(s) 123, 428, 670, 723, 913, 1242
TauI GCSGC 3 cut(s) 179, 201, 862
TfiI GAWTC 4 cut(s) 505, 743, 826, 964
Tru1I TTAA 1 cut(s) 366
Tru9I TTAA 1 cut(s) 366
TscAI CASTG 1 cut(s) 1240
TseI GCWGC 2 cut(s) 237, 527
TspDTI ATGAA 3 cut(s) 11, 357, 713
TspRI CASTG 1 cut(s) 1240
VpaK11BI GGWCC 1 cut(s) 1033
XapI RAATTY 3 cut(s) 123, 670, 723
XbaI TCTAGA 1 cut(s) 508
XceI RCATGY 3 cut(s) 92, 492, 619
XmnI GAANNNNTTC 1 cut(s) 1125
XspI CTAG 4 cut(s) 509, 515, 810, 848
Zsp2I ATGCAT 2 cut(s) 6, 90
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.